tseemann / mlst
Scan contig files against PubMLST typing schemes
☆219Updated 2 years ago
Alternatives and similar repositories for mlst:
Users that are interested in mlst are comparing it to the libraries listed below
- A tool for generating consensus long-read assemblies for bacterial genomes☆316Updated 9 months ago
- An updated pipeline for pangenome investigation☆288Updated 2 weeks ago
- quality filtering tool for long reads☆323Updated last year
- customizable pipeline to identify viral sequences from (meta)genomic data☆240Updated 3 months ago
- BSR-Based Allele Calling Algorithm☆140Updated last week
- Bacterial ribosomal RNA predictor☆238Updated last year
- Rapid comparison and dereplication of genomes☆278Updated 3 months ago
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆204Updated 3 months ago
- Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics☆183Updated last month
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆218Updated 2 years ago
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆139Updated 5 months ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆329Updated last year
- Pilon is an automated genome assembly improvement and variant detection tool☆354Updated 2 years ago
- geNomad: Identification of mobile genetic elements☆221Updated this week
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆362Updated 6 months ago
- Filtering and trimming of long read sequencing data☆201Updated 2 years ago
- Tool to plot synteny and structural rearrangements between genomes☆300Updated last month
- Processing pipeline for pan-genome visulization and exploration☆138Updated last year
- ☆199Updated last month
- Assessing the quality of metagenome-derived genome bins using machine learning☆198Updated last week
- Pan-genome wide association studies☆191Updated 9 months ago
- fast phage annotation program☆158Updated 2 months ago
- Finds SNP sites from a multi-FASTA alignment file☆255Updated 4 years ago
- Build a partitioned pangenome graph from microbial genomes☆260Updated last week
- Synteny and Rearrangement Identifier☆367Updated 3 weeks ago
- Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…☆303Updated 3 weeks ago
- Eukaryotic Genome Annotation Pipeline☆338Updated 2 weeks ago
- Assembly and binning of metagenomes☆228Updated last week
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data☆138Updated last week
- Fast and accurately polish the genome generated by long reads.☆219Updated 2 months ago